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Farfán-Paredes M, Labra-Vázquez P, González-Antonio O, Martínez-Bourget D, Guzmán-Cedillo C, Galindo-Hernández A, Romero M, Santillan R, Farfán N. Halogen Bonding in Brominated BODIPY Crystals: a Crystallographic and Computational Study. Chemistry 2023:e202302847. [PMID: 37743257 DOI: 10.1002/chem.202302847] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 09/20/2023] [Accepted: 09/21/2023] [Indexed: 09/26/2023]
Abstract
The study of halogen bonds (XBs) has been a subject of great interest in recent years due to its clear application in catalysis, liquid crystals, and crystal engineering. In this study, we analyzed the intermolecular interactions, in particular halogen bonds in BODIPYs with an increasing number of bromine atoms. The computational study included analyses through three different methods: the first approach of close contacts provided by mercury, then the expanded approach of the electron density partition of the molecules in the crystals provided by the analysis of Hirshfeld surfaces, and finally, the approach of the Quantum Theory of Atoms in Molecules (QT-AIM) to characterize the non-covalent interactions through finding electron density critical points between atoms and between neighboring molecules. The use of different computational methods allowed to gain insight into the interactions directing the crystal packing as the number of bromine atoms increased in the BODIPY moiety. Monocoordinated and bifurcated halogen bonds involving halide/halide were found. The penta-brominated BODIPY showed four-center cyclic nodes where each node is linked via XBs. This kind of motif can be useful in supramolecular chemistry and self-assembly.
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Affiliation(s)
- Mónica Farfán-Paredes
- Departamento de Química, Centro de Investigación y de Estudios Avanzados del IPN, Av. Instituto Politécnico Nacional 2508, Col. San Pedro Zacatenco, Gustavo A. Madero, C.P. 07360, Ciudad de México, México
| | - Pablo Labra-Vázquez
- CIRIMAT, Université de Toulouse, CNRS, Université Toulouse 3-Paul Sabatier, 118 Route de Narbonne, 31062, Toulouse Cedex 9, France
| | - Oscar González-Antonio
- Departamento de Química Orgánica, Facultad de Química, Universidad Nacional Autónoma de México, Av. Universidad 3000, Coyoacán, C.P. 04510, Ciudad de México, México
| | - Diego Martínez-Bourget
- Departamento de Química Orgánica, Facultad de Química, Universidad Nacional Autónoma de México, Av. Universidad 3000, Coyoacán, C.P. 04510, Ciudad de México, México
| | - Cristian Guzmán-Cedillo
- Departamento de Química Orgánica, Facultad de Química, Universidad Nacional Autónoma de México, Av. Universidad 3000, Coyoacán, C.P. 04510, Ciudad de México, México
| | - Aylin Galindo-Hernández
- Departamento de Química Orgánica, Facultad de Química, Universidad Nacional Autónoma de México, Av. Universidad 3000, Coyoacán, C.P. 04510, Ciudad de México, México
| | - Margarita Romero
- Departamento de Química Orgánica, Facultad de Química, Universidad Nacional Autónoma de México, Av. Universidad 3000, Coyoacán, C.P. 04510, Ciudad de México, México
| | - Rosa Santillan
- Departamento de Química, Centro de Investigación y de Estudios Avanzados del IPN, Av. Instituto Politécnico Nacional 2508, Col. San Pedro Zacatenco, Gustavo A. Madero, C.P. 07360, Ciudad de México, México
| | - Norberto Farfán
- Departamento de Química Orgánica, Facultad de Química, Universidad Nacional Autónoma de México, Av. Universidad 3000, Coyoacán, C.P. 04510, Ciudad de México, México
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Szell PMJ, Nilsson Lill SO, Blade H, Brown SP, Hughes LP. A toolbox for improving the workflow of NMR crystallography. SOLID STATE NUCLEAR MAGNETIC RESONANCE 2021; 116:101761. [PMID: 34736104 DOI: 10.1016/j.ssnmr.2021.101761] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Revised: 10/04/2021] [Accepted: 10/04/2021] [Indexed: 06/13/2023]
Abstract
NMR crystallography is a powerful tool with applications in structural characterization and crystal structure verification, to name two. However, applying this tool presents several challenges, especially for industrial users, in terms of consistency, workflow, time consumption, and the requirement for a high level of understanding of experimental solid-state NMR and GIPAW-DFT calculations. Here, we have developed a series of fully parameterized scripts for use in Materials Studio and TopSpin, based on the .magres file format, with a focus on organic molecules (e.g. pharmaceuticals), improving efficiency, robustness, and workflow. We separate these tools into three major categories: performing the DFT calculations, extracting & visualizing the results, and crystallographic modelling. These scripts will rapidly submit fully parameterized CASTEP jobs, extract data from the calculations, assist in visualizing the results, and expedite the process of structural modelling. Accompanied with these tools is a description on their functionality, documentation on how to get started and use the scripts, and links to video tutorials for guiding new users. Through the use of these tools, we hope to facilitate NMR crystallography and to harmonize the process across users.
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Affiliation(s)
| | - Sten O Nilsson Lill
- Early Product Development and Manufacturing, Pharmaceutical Sciences, R&D, AstraZeneca, Gothenburg, Sweden
| | - Helen Blade
- Oral Product Development, Pharmaceutical Technology & Development, Operations, AstraZeneca, Macclesfield, UK
| | - Steven P Brown
- Department of Physics, University of Warwick, Coventry, CV4 7AL, UK.
| | - Leslie P Hughes
- Oral Product Development, Pharmaceutical Technology & Development, Operations, AstraZeneca, Macclesfield, UK.
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